NFKB1.H12CORE.0.PS.A motif - HOmo sapiens COmprehensive MOdel COllection

Motif	NFKB1.H12CORE.0.PS.A
Gene (human)	NFKB1 (GeneCards)
Gene synonyms (human)
Gene (mouse)	Nfkb1
Gene synonyms (mouse)
LOGO
LOGO (reverse complement)
Motif subtype	0
Quality	A

Motif length	12
Consensus	dGGGAAAdYCCC
GC content	61.21%
Information content (bits; total / per base)	15.492 / 1.291
Data sources	ChIP-Seq + HT-SELEX
Aligned words	871

ChIP-Seq benchmarking	Num. of experiments (peaksets)	auROC, median	auROC, best	auPRC, median	auPRC, best	pseudo-auROC, median	pseudo-auROC, best	pseudo-log-auROC, median	pseudo-log-auROC, best	Centrality, median	Centrality, best
Human	7 (37)	0.957	0.99	0.93	0.982	0.943	0.983	4.827	5.622	564.244	862.658
Mouse	7 (35)	0.738	0.911	0.743	0.902	0.661	0.873	3.628	4.471	106.301	480.194

HT-SELEX benchmarking		auROC10	auPRC10	auROC25	auPRC25	auROC50	auPRC50
Non-Methyl HT-SELEX, 2 experiments	median	0.651	0.671	0.569	0.587	0.535	0.55
Non-Methyl HT-SELEX, 2 experiments	best	0.747	0.768	0.613	0.638	0.556	0.579

rSNP benchmarking, ADASTRA	odds-ratio	-log-Fisher's P	Pearson r	Kendall tau
#	7.579	2.118	0.517	0.296

TF superclass	Immunoglobulin fold {6} (TFClass)
TF class	Rel homology region (RHR) factors {6.1} (TFClass)
TF family	NFkappaB-related {6.1.1} (TFClass)
TF subfamily	NFkappaB p50-like {6.1.1.1} (TFClass)
TFClass ID	TFClass: 6.1.1.1.1
HGNC	HGNC:7794
MGI	MGI:97312
EntrezGene (human)	GeneID:4790 (SSTAR profile)
EntrezGene (mouse)	GeneID:18033 (SSTAR profile)
UniProt ID (human)	NFKB1_HUMAN
UniProt ID (mouse)	NFKB1_MOUSE
UniProt AC (human)	P19838 (TFClass)
UniProt AC (mouse)	P25799 (TFClass)
GRECO-DB-TF	yes

ChIP-Seq	7 human, 7 mouse
HT-SELEX	2
Methyl-HT-SELEX	0

PCM	NFKB1.H12CORE.0.PS.A.pcm
PWM	NFKB1.H12CORE.0.PS.A.pwm
PFM	NFKB1.H12CORE.0.PS.A.pfm
Alignment	NFKB1.H12CORE.0.PS.A.words.tsv
Threshold to P-value map	NFKB1.H12CORE.0.PS.A.thr
Motif in other formats
JASPAR format	NFKB1.H12CORE.0.PS.A_jaspar_format.txt
MEME format	NFKB1.H12CORE.0.PS.A_meme_format.meme
Transfac format	NFKB1.H12CORE.0.PS.A_transfac_format.txt
Homer format	NFKB1.H12CORE.0.PS.A_homer_format_0.001.txt NFKB1.H12CORE.0.PS.A_homer_format_0.0005.txt NFKB1.H12CORE.0.PS.A_homer_format_0.0001.txt

PCM

	A	C	G	T
01	368.0	84.0	257.0	162.0
02	16.0	8.0	819.0	28.0
03	5.0	0.0	858.0	8.0
04	6.0	0.0	857.0	8.0
05	641.0	5.0	222.0	3.0
06	806.0	28.0	34.0	3.0
07	841.0	19.0	10.0	1.0
08	132.0	123.0	237.0	379.0
09	50.0	368.0	9.0	444.0
10	75.0	788.0	1.0	7.0
11	10.0	855.0	2.0	4.0
12	45.0	793.0	21.0	12.0

PFM

	A	C	G	T
01	0.423	0.096	0.295	0.186
02	0.018	0.009	0.94	0.032
03	0.006	0.0	0.985	0.009
04	0.007	0.0	0.984	0.009
05	0.736	0.006	0.255	0.003
06	0.925	0.032	0.039	0.003
07	0.966	0.022	0.011	0.001
08	0.152	0.141	0.272	0.435
09	0.057	0.423	0.01	0.51
10	0.086	0.905	0.001	0.008
11	0.011	0.982	0.002	0.005
12	0.052	0.91	0.024	0.014

PWM

	A	C	G	T
01	0.522	-0.94	0.165	-0.293
02	-2.518	-3.12	1.319	-2.0
03	-3.49	-4.865	1.365	-3.12
04	-3.351	-4.865	1.364	-3.12
05	1.075	-3.49	0.019	-3.845
06	1.303	-2.0	-1.816	-3.845
07	1.346	-2.361	-2.932	-4.401
08	-0.496	-0.565	0.084	0.551
09	-1.446	0.522	-3.022	0.709
10	-1.051	1.281	-4.401	-3.229
11	-2.932	1.362	-4.085	-3.652
12	-1.548	1.287	-2.269	-2.774

Standard thresholds

P-value	Threshold
0.001	2.388715
0.0005	3.66777
0.0001	6.33363